| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0001 | RNA-seq, substrate binding assay, enzyme activity assay, mass spectrometry | beta-mannan | Roseburia intestinalis | <a href=https://pubmed.ncbi.nlm.nih.gov/30796211/>30796211</a> The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary beta-mannans. Nat Commun. 2019 Feb 22;10(1):905. doi: 10.1038/s41467-019-08812-y. |
2019 Feb 22 | degradation | 15 | 9 | CE17, CBM35inCE17, CE2, GH1, GH113, GH130_1, GH130_2, GH36 |
| PUL0037 | enzyme activity assay | raffinose | Streptococcus pneumoniae | <a href=https://pubmed.ncbi.nlm.nih.gov/31591266/>31591266</a> Molecular analysis of an enigmatic Streptococcus pneumoniae virulence factor: The raffinose-family oligosaccharide utilization system. J Biol Chem. 2019 Nov 15;294(46):17197-17208. doi: 10.1074/jbc.RA119.010280. Epub 2019 Oct 7. |
2019 Nov 15 | degradation | 8 | 2 | GH13_18, GH36 |
| PUL0038 | enzyme activity assay, Southern Blot | melibiose | Thermus brockianus | <a href=https://pubmed.ncbi.nlm.nih.gov/10741834/>10741834</a> The structure of the alpha-galactosidase gene loci in Thermus brockianus ITI360 and Thermus thermophilus TH125. Extremophiles. 2000 Feb;4(1):23-33. doi: 10.1007/s007920050004. |
2000 Feb | degradation | 8 | 2 | GH36, GH42 |
| PUL0039 | enzyme activity assay, Southern Blot | melibiose | Thermus thermophilus | <a href=https://pubmed.ncbi.nlm.nih.gov/10741834/>10741834</a> The structure of the alpha-galactosidase gene loci in Thermus brockianus ITI360 and Thermus thermophilus TH125. Extremophiles. 2000 Feb;4(1):23-33. doi: 10.1007/s007920050004. |
2000 Feb | degradation | 3 | 1 | GH36 |
| PUL0068 | enzyme activity assay, electrophoretic mobility shift assay | raffinose | Escherichia coli | <a href=https://pubmed.ncbi.nlm.nih.gov/8277949/>8277949</a> Role of two operators in regulating the plasmid-borne raf operon of Escherichia coli. Mol Gen Genet. 1994 Jan;242(1):90-9. doi: 10.1007/BF00277352. |
1994 Jan | degradation | 4 | 2 | GH32, GH36 |
| PUL0088 | Southern Blot | raffinose | Streptococcus mutans | <a href=https://pubmed.ncbi.nlm.nih.gov/8764489/>8764489</a> The multiple-sugar metabolism (msm) gene cluster of Streptococcus mutans is transcribed as a single operon. FEMS Microbiol Lett. 1996 Jul 1;140(2-3):261-4. doi: 10.1016/0378-1097(96)00191-7. |
1996 Jul 1 | degradation | 8 | 3 | GH13_18, GH13_31, GH36 |
| PUL0122 | enzyme activity assay | alpha-galactan | Thermotoga maritima | <a href=https://pubmed.ncbi.nlm.nih.gov/9741105/>9741105</a> Properties of an alpha-galactosidase, and structure of its gene galA, within an alpha-and beta-galactoside utilization gene cluster of the hyperthermophilic bacterium Thermotoga maritima. Syst Appl Microbiol. 1998 Mar;21(1):1-11. doi: 10.1016/s0723-2020(98)80002-7. |
1998 Mar | degradation | 6 | 3 | GH2, GH36, GH42 |
| PUL0138 | sequence homology analysis | raffinose | Bifidobacterium animalis subsp. animalis | <a href=https://pubmed.ncbi.nlm.nih.gov/30306201/>30306201</a> Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10. |
2018 Dec | degradation | 7 | 2 | GH36 |
| PUL0167 | mass spectrometry, sequence homology analysis | beta-mannan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/30246424/>30246424</a> Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16. |
2018 Nov | degradation | 12 | 4 | GH130_1, GH26, GH36 |
| PUL0178 | enzyme activity assay, enzyme specificity assay, substrate specificity assay | galactomannan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/27288925/>27288925</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/22205877/>22205877</a> A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. |
2016 Jul,2011 Dec | degradation | 14 | 4 | GH130_1, GH26, GH36 |
| PUL0180 | enzyme activity assay | galactomannan | Bacteroides fragilis | <a href=https://pubmed.ncbi.nlm.nih.gov/27288925/>27288925</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/21539815/>21539815</a> A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. New microbial mannan catabolic pathway that involves a novel mannosylglucose phosphorylase. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. Biochem Biophys Res Commun. 2011 May 20;408(4):701-6. doi: 10.1016/j.bbrc.2011.04.095. Epub 2011 Apr 24. |
2016 Jul,2011 May 20 | degradation | 19 | 3 | GH29, GH36 |
| PUL0232 | microarray, electrophoretic mobility shift assay | raffinose | Bifidobacterium breve | <a href=https://pubmed.ncbi.nlm.nih.gov/24705323/>24705323</a> Transcription of two adjacent carbohydrate utilization gene clusters in Bifidobacterium breve UCC2003 is controlled by LacI- and repressor open reading frame kinase (ROK)-type regulators. Appl Environ Microbiol. 2014 Jun;80(12):3604-14. doi: 10.1128/AEM.00130-14. |
2014 Jun | degradation | 6 | 1 | GH36 |
| PUL0233 | microarray, electrophoretic mobility shift assay | melicitose | Bifidobacterium breve | <a href=https://pubmed.ncbi.nlm.nih.gov/24705323/>24705323</a> Transcription of two adjacent carbohydrate utilization gene clusters in Bifidobacterium breve UCC2003 is controlled by LacI- and repressor open reading frame kinase (ROK)-type regulators. Appl Environ Microbiol. 2014 Jun;80(12):3604-14. doi: 10.1128/AEM.00130-14. |
2014 Jun | degradation | 5 | 2 | GH13_30, GH36 |
| PUL0239 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00026 | <a href=https://pubmed.ncbi.nlm.nih.gov/24448980/>24448980</a> Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 16 | 9 | CE20, CE7, GH130_1, GH26, GH26, GH5_4, GH3, GH36, GH5_7 |
| PUL0241 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00033 | <a href=https://pubmed.ncbi.nlm.nih.gov/24448980/>24448980</a> Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 6 | 2 | GH36, GH5_4 |
| PUL0243 | fosmid library screen, sequence homology analysis | cellulose | Prevotella sp. Sc00066 | <a href=https://pubmed.ncbi.nlm.nih.gov/24448980/>24448980</a> Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22. |
2014 Mar | degradation | 11 | 3 | GH36, GH5_38, GH94 |
| PUL0246 | enzyme activity assay, gene deletion mutant and growth assay, Western Blot | fucose | Streptococcus pneumoniae | <a href=https://pubmed.ncbi.nlm.nih.gov/24333485/>24333485</a> Structural and functional analysis of fucose-processing enzymes from Streptococcus pneumoniae. J Mol Biol. 2014 Apr 3;426(7):1469-82. doi: 10.1016/j.jmb.2013.12.006. Epub 2013 Dec 12. |
2014 Apr 3 | degradation | 11 | 4 | CBM51, CBM51, GH98, GH29, GH36 |
| PUL0266 | enzyme activity assay | human milk oligosaccharide | Halorubrum lacusprofundi | <a href=https://pubmed.ncbi.nlm.nih.gov/23320757/>23320757</a> Cloning, overexpression, purification, and characterization of a polyextremophilic beta-galactosidase from the Antarctic haloarchaeon Halorubrum lacusprofundi. BMC Biotechnol. 2013 Jan 16;13:3. doi: 10.1186/1472-6750-13-3. |
2013 Jan 16 | degradation | 15 | 2 | GH36, GH42 |
| PUL0276 | RT-qPCR | starch | Bifidobacterium animalis subsp. lactis | <a href=https://pubmed.ncbi.nlm.nih.gov/23663691/>23663691</a> Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312. |
2013 May 10 | degradation | 9 | 3 | GH13_31, GH36 |
| PUL0374 | microarray, qPCR | melibiose | Dickeya dadantii | <a href=https://pubmed.ncbi.nlm.nih.gov/19734309/>19734309</a> Catabolism of raffinose, sucrose, and melibiose in Erwinia chrysanthemi 3937. J Bacteriol. 2009 Nov;191(22):6960-7. doi: 10.1128/JB.00594-09. Epub 2009 Sep 4. |
2009 Nov | degradation | 3 | 1 | GH36 |
| PUL0486 | RT-PCR, sugar utilization assay | raffinose | Streptococcus pneumoniae | <a href=https://pubmed.ncbi.nlm.nih.gov/10613841/>10613841</a> Regulation of the alpha-galactosidase activity in Streptococcus pneumoniae: characterization of the raffinose utilization system. Genome Res. 1999 Dec;9(12):1189-97. doi: 10.1101/gr.9.12.1189. |
1999 Dec | degradation | 8 | 2 | GH13_18, GH36 |
| PUL0561 | clone and expression, enzyme activity assay | alpha-galactan | Lactobacillus plantarum | <a href=https://pubmed.ncbi.nlm.nih.gov/12406739/>12406739</a> Characterization of the melA locus for alpha-galactosidase in Lactobacillus plantarum. Appl Environ Microbiol. 2002 Nov;68(11):5464-71. doi: 10.1128/AEM.68.11.5464-5471.2002. |
2002 Nov | degradation | 5 | 2 | GH2, GH36 |
| PUL0565 | microarray, qPCR | galactomannan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/22205877/>22205877</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/27872187/>27872187</a> Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Galactomannan Catabolism Conferred by a Polysaccharide Utilization Locus of Bacteroides ovatus: ENZYME SYNERGY AND CRYSTAL STRUCTURE OF A beta-MANNANASE. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. J Biol Chem. 2017 Jan 6;292(1):229-243. doi: 10.1074/jbc.M116.746438. Epub 2016 Nov 21. |
2011 Dec,2017 Jan 6 | degradation | 10 | 4 | GH130_1, GH26, GH36 |
| PUL0575 | microarray, growth assay, gene deletion mutant and growth assay | raffinose | Enterococcus faecium | <a href=https://pubmed.ncbi.nlm.nih.gov/20946531/>20946531</a> A genetic element present on megaplasmids allows Enterococcus faecium to use raffinose as carbon source. Environ Microbiol. 2011 Feb;13(2):518-28. doi: 10.1111/j.1462-2920.2010.02355.x. Epub 2010 Oct 15. |
2011 Feb | degradation | 11 | 4 | GH13_18, GH13_31, GH36, GH4 |
| PUL0584 | microarray | melibiose | Lactococcus lactis | <a href=https://pubmed.ncbi.nlm.nih.gov/23530958/>23530958</a> Genotype-phenotype matching analysis of 38 Lactococcus lactis strains using random forest methods. BMC Microbiol. 2013 Mar 26;13:68. doi: 10.1186/1471-2180-13-68. |
2013 Mar 26 | degradation | 11 | 2 | GH13_18, GH36 |
| PUL0618 | RNA-seq | pectin | Prevotella sp. PINT | <a href=https://pubmed.ncbi.nlm.nih.gov/33113351/>33113351</a> Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 6 | 2 | GH36, PL1 |
| PUL0642 | recombinant protein expression | starch | Roseburia intestinalis L1-82 | <a href=https://pubmed.ncbi.nlm.nih.gov/33439065/>33439065</a> Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 2021 Jan-Dec;13(1):1-20. doi: 10.1080/19490976.2020.1869503. |
2021 Jan-Dec | degradation | 11 | 6 | CBM61, GH53, CBM86, CBM22, GH10, CBM9, GH13_18, GH13_31, GH32, GH36 |
| PUL0650 | enzyme activity assay, high-performance anion-exchange chromatography, recombinant protein expression, NMR, gene deletion mutant and growth assay | arabinogalactan | Bifidobacterium longum JCM 7052 | <a href=https://pubmed.ncbi.nlm.nih.gov/33674431/>33674431</a> Novel 3-O-alpha-d-Galactosyl-alpha-l-Arabinofuranosidase for the Assimilation of Gum Arabic Arabinogalactan Protein in Bifidobacterium longum subsp. longum. Appl Environ Microbiol. 2021 Apr 27;87(10):e02690-20. doi: 10.1128/AEM.02690-20. Print 2021 Apr 27. |
2021 Apr 27 | degradation | 7 | 2 | GH36, GH39, CBM35 |
| PUL0658 | qPCR, growth assay | beta-mannooligosaccharide | Faecalibacterium prausnitzii SL3/3 | <a href=https://pubmed.ncbi.nlm.nih.gov/34061597/>34061597</a> Human Gut Faecalibacterium prausnitzii Deploys a Highly Efficient Conserved System To Cross-Feed on beta-Mannan-Derived Oligosaccharides. mBio. 2021 Jun 29;12(3):e0362820. doi: 10.1128/mBio.03628-20. Epub 2021 Jun 1. |
2021 Jun 29 | degradation | 14 | 6 | CE17, CBM35inCE17, CBM35inCE17, CE2, GH113, GH130_1, GH130_2, GH36 |
| PUL0664 | thin-layer chromatography, clone and expression, recombinant protein expression | arabinogalactan | Bacteroides plebeius DSM17135 | <a href=https://pubmed.ncbi.nlm.nih.gov/34340552/>34340552</a> Sulfation of Arabinogalactan Proteins Confers Privileged Nutrient Status to Bacteroides plebeius. mBio. 2021 Aug 31;12(4):e0136821. doi: 10.1128/mBio.01368-21. Epub 2021 Aug 3. |
2021 Aug 31 | degradation | 16 | 8 | GH2, GH27, GH36, GH43, GH49 |
| PUL0678 | RNA-seq, thin-layer chromatography, growth assay | inulin | Lactiplantibacillus plantarum QS7T | <a href=https://pubmed.ncbi.nlm.nih.gov/34980384/>34980384</a> Global genome and comparative transcriptomic analysis reveal the inulin consumption strategy of Lactiplantibacillus plantarum QS7T. Food Res Int. 2022 Jan;151:110846. doi: 10.1016/j.foodres.2021.110846. Epub 2021 Dec 2. |
2022 Jan | degradation | 5 | 2 | GH32, GH36 |
| PUL0689 | clone and expression, crystallization, recombinant protein expression, thin-layer chromatography | galactooligosaccharide | Bacteroides thetaiotaomicron VPI-5482 | <a href=https://pubmed.ncbi.nlm.nih.gov/34149636/>34149636</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/37598339/>37598339</a> Analysis of Two SusE-Like Enzymes From Bacteroides thetaiotaomicron Reveals a Potential Degradative Capacity for This Protein Family. Dynamic genetic adaptation of Bacteroides thetaiotaomicron during murine gut colonization. Front Microbiol. 2021 Jun 4;12:645765. doi: 10.3389/fmicb.2021.645765. eCollection 2021. Cell Rep. 2023 Aug 29;42(8):113009. doi: 10.1016/j.celrep.2023.113009. Epub 2023 Aug 21. |
2021,2023 Aug 29 | degradation | 10 | 4 | GH2, CBM32, GH3, GH36, GH43_10, CBM91 |
| PUL0699 | RT-qPCR, high-performance anion-exchange chromatography | beta-mannan | Roseburia hominis A2-183 | <a href=https://pubmed.ncbi.nlm.nih.gov/36557749/>36557749</a> Cross-Feeding and Enzymatic Catabolism for Mannan-Oligosaccharide Utilization by the Butyrate-Producing Gut Bacterium Roseburia hominis A2-183. Microorganisms. 2022 Dec 16;10(12):2496. doi: 10.3390/microorganisms10122496. |
2022 Dec 16 | degradation | 14 | 7 | CE17, CBM35inCE17, CE2, GH1, GH130_1, GH130_2, GH3, GH36 |
| PUL0717 | gene mutant, mice colonization with mutant | raffinose family oligosaccharides | Bacteroides thetaiotaomicron VPI-5482 | <a href=https://pubmed.ncbi.nlm.nih.gov/37598339/>37598339</a> Dynamic genetic adaptation of Bacteroides thetaiotaomicron during murine gut colonization. Cell Rep. 2023 Aug 29;42(8):113009. doi: 10.1016/j.celrep.2023.113009. Epub 2023 Aug 21. |
2023 Aug 29 | degradation | 5 | 4 | CE20, CE20, GH27, GH36, GH92 |
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